Postdoctoral Researcher

University of Chile

Santiago, Chile

Present - Apr. 2021

• Fondecyt postdoctoral research grant: Linguistic characterization of the Chilean clinical text: towards an automatic extraction of information

Ph.D. in Biomedical Sciences

University of Chile

Santiago, Chile

Jan. 2018 - Mar. 2013

• Thesis: Genetic linkage and association analysis to identify genetic risk markers of cholelithiasis and gallbladder cancer in Chile.

M.S. in Biological Sciences, mention in Genetics

University of Chile

Santiago, Chile

Jun. 2013 - Apr. 2011

• Thesis: Role of the TRPM4 channel in the development of prostate cancer in a transgenic murine model.

B.S. Microbiology and Bioanalysis

University of Antioquia

Medellín, Colombia

May. 2009 - Jan. 2003

Researcher

Center for Mathematical Modeling, University of Chile

Santiago, Chile

Jul. 2021 - Jan. 2021

• Named entity recognition of tumor morphology and topography from surgical pathology reports.
• PI: Jocelyn Dunstan

Researcher

Center for Medical Informatics and Telemedicine, University of Chile

Santiago, Chile

Mar. 2021 - Jan. 2020

• Automatic analysis of clinical narratives produced in Chile using neural networks.
• PI: Jocelyn Dunstan

Researcher

Center for Medical Informatics and Telemedicine, University of Chile

Santiago, Chile

Dec. 2020 - Dec. 2019

• FONDEF IDeA I+D 2019 (2019-2021): “Deep-Pathology: Distributed TelePathology Platform Based on Blockchain and Collaborative Diagnosis Supported by Deep Learning”.
• PI: Steffen Härtel Gründler

Postdoctoral Researcher

Center for Medical Informatics and Telemedicine, University of Chile

Santiago, Chile

Dec 2019 - Sep. 2018

• Systematic analysis of family history in free text of electronic medical records.

Research Assistant

Foundation for Advanced Biomedical Studies (FEBA), Faculty of Medicine, University of Chile

Santiago, Chile

Apr. 2018 - Dec. 2017

• Analysis of germline and somatic genetic variants in patients with gallbladder cancer.

Graduate Research Assistant

Cancer Genomics Laboratory, Faculty of Medicine, University of Chile

Santiago, Chile

Jan. 2018 - Aug. 2014

• Statistical analysis of socio-demographic information
• Genetic linkage analysis in families with multiple gallbladder cancer patients
• Fine mapping and genome wide association analysis in a case-control study

Graduate Student Fellow

Institute of Medical Biometry and Informatics (IMBI), University Hospital Heidelberg

Heidelberg, Germany

Feb. 2016 - Aug. 2015

• Trained in specialized bioinformatics tools (R, PLINK and Mendel) to analyze genetic data
• Attended the EMBL Conference: Cancer Genomics
• Attended scientific talks organized by the University of Heidelberg and the German Center for Oncological Research (dkfz)

Graduate Research Assistant

Laboratory of Molecular Cancer Pathology, Faculty of Medicine, University of Chile

Santiago, Chile

Jun. 2013 - Mar. 2012

• Histopathological analysis of prostate, lymph nodes and lung sections of a murine model of prostate cancer (TRAMP mice)
• Quantification of mRNA using real-time RT-PCR on TRAMP mice prostates

Diagnosis Foundation

Advisory member of the Diagnosis Foundation

Santiago, Chile

Dec. 2021 - Nov. 2019

• Support the diagnosis and research of unknown diseases
• Promote the knowledge generation through ethical and collaborative scientific research

Master Thesis Supervisor

International Master in Medical Informatics, University of Chile

Santiago, Chile

Jun. 2022 - Jul. 2021

• Automatic Staging of Distant Metastases in Imaging Reports Using Natural Language Processing
• Ricardo Ahumada’s Master Thesis Supervisor together with Jocelyn Dunstan PhD

Master Thesis Examiner

International Master in Medical Informatics, University of Chile

Santiago, Chile

Apr. 2022 - Jul. 2021

• Automatic transcription and extraction of key information from Spanish-language clinical audios
• Maicol Fernandez’s Master Thesis Examiner

Undergraduate Teaching - Coordinating Professor

School of Medical Technology, Universidad del Desarrollo

Santiago, Chile

Dec. 2021 - Aug. 2021

• CB. Bioinformatics in Molecular Diagnostics
• Course belonging to the formative area of the Morphophysiopathology and Cytodiagnosis specialty, with 102 academic hours taught in the eighth semester of the Study Plan

Graduate Teaching - Guest Professor

International Master in Medical Informatics, University of Chile

Santiago, Chile

Jun. 2021

• CA. Statistical Analysis Methods II
• Language Resources Creation for NLP

Graduate Teaching - Coordinating Professor

International Master in Medical Informatics, University of Chile

Santiago, Chile

Dec. 2020 - Mar. 2020

• CA. Bioinformatics I and II

Graduate Teaching - Guest Professor

International Master in Medical Informatics, University of Chile

Santiago, Chile

Jul. 2020 - May. 2020

• CB. Biostatistics I and II

Undergraduate Student Supervisor

Faculty of Medicine, University of Chile

Santiago, Chile

Dec. 2020 - Mar. 2020

• Research Unit I and II
• 40 hour tutoring of second-year medical students
• Guidance on the construction and execution of a short research project

Graduate Teaching - Guest Professor

International Master in Medical Informatics, University of Chile

Santiago, Chile

Oct. 2018

• CA. Biomedicine II
• Genetic epidemiology studies in cancer

Undergraduate Teaching - Guest Professor

School of Medical Technology, Universidad del Desarrollo

Santiago, Chile

Oct. 2018 - Aug. 2018

• CB. Scientific Bases of Medical Technology

Undergraduate Teaching - Guest Professor

School of Medical Technology, Universidad Mayor

Santiago, Chile

Sep. 2017

• CB. Applied Biotechnology

Undergraduate Student Supervisor

Faculty of Medicine, University of Chile

Santiago, Chile

Jan. 2017 - Mar. 2016

• Research Unit I and II
• 40 hour tutoring of second-year medical students
• Guidance on the construction and execution of a short research project

Undergraduate Teaching - Auxiliary Guest Professor

School of Medical Technology, ICBM, University of Chile

Santiago, Chile

May. 2015

• Seminars on the application of Molecular Biology

Adjunct Faculty

School of Microbiology, University of Antioquia

Medellín, Colombia

Aug. 2009 - Jun. 2009

• Anatomy and physiology III - Hematopathology – Hematology

Auxiliary Professor

School of Microbiology, University of Antioquia

Medellín, Colombia

Nov. 2008 - Jun. 2007

• Hematology

Automatic support system for tumor coding inpathology reports in Spanish

Artificial Intelligence In Medicine, AIIM-D-21-01799

Santiago, Chile

2022

• Villena, F., Báez, P., Peñafiel, S., Rojas, M. & Dunstan, J.
• 

Automatic Extraction of Nested Entities in Clinical Referrals in Spanish

ACM Transactions on Computing for Healthcare (HEALTH), 2022, vol. 3, no 3, p. 1-22.

Santiago, Chile

2022

• Báez, P., Bravo-Marquez, F., Dunstan, J., Rojas, M. & Villena, F.
• 

Construcción de recursos de texto para la identificación automática de información clínica en narrativas no estructuradas

Revista Médica de Chile, 149(7).

Santiago, Chile

2021

• Báez, P., Villena, F., Zúñiga K., Jones N., Fernández G., Durán, M. & Dunstan, J.
• 

Prevalencia de colecistolitiasis y cáncer de vesícula en una población rural Aymara de Chile

Revista Médica de Chile, 148(10).

Santiago, Chile

2020

• Fonseca C, M., Baéz B, P., Csendes J, A., Calcagno Z, S., Marcelain C, K., Vargas M, P., García R, J., & Barlaro F, T.
• 

The Chilean Waiting List Corpus: a new resource for Clinical Named Entity Recognition

Proceedings of the 3rd Clinical Natural Language Processing Workshop (pp. 291-300)

Santiago, Chile

2020

• Báez, P., Villena, F., Rojas, M., Durán, M., & Dunstan, J.
• Best Paper Session at the 3rd Clinical NLP Workshop - EMNLP Conference 2020
• 

ABCB1/4 Gallbladder Cancer Risk Variants Identified in India Also Show Strong Effects in Chileans

Cancer Epidemiol. 2020 Apr;65:101643.

Santiago, Chile

2020

• Boekstegers F., Marcelain K., Barahona C., Báez P., Müller B., et al.
• 

TRPM4 regulates Akt/GSK3-β activity and enhances β-catenin signaling and cell proliferation in prostate cancer cells

Mol Oncol. 2018 Feb; 12(2):151-165.

Santiago, Chile

2018

• Sagredo, A. I., Sagredo, E. A., Cappelli, C., Báez, P., Rodrigo, A. M., et al.
• 

Subtypes of Native American ancestry and leading causes of death: Mapuche ancestry-specific associations with gallbladder cancer risk in Chile

PLoS Genet 13(5): e1006756.

Santiago, Chile

2017

• Lorenzo Bermejo J, Boekstegers F, González Silos R, Marcelain K, Báez P., et al.
• 

Mast Cell Infiltration and Kit and Protease Expression During Progression of a Transgenic Prostate Cancer Murine Model (TRAMP)

Journal of Comparative Pathology, 150(1), 88.

Santiago, Chile

2014

• González, C., Armisén, R., Stutzin, A., Baez, P., Landerer, E., Paredes, R., Contreras, I., Muñoz, C.

Actualización en cáncer de próstata: generalidades y diagnóstico

Medicina & Laboratorio, 18, 7-8.

Santiago, Chile

2012

• Báez, P., Armisén Yañez, R.

Colonización por Staphylococcus aureus resistente a meticilina en las manos de individuos de la comunidad

Iatreia, 23(1), 5-9.

Medellín, Colombia

2010

• Báez, P., Zapata Tamayo, M., Ramírez Pérez, A., Rúa Giraldo, A., & Jiménez Quiceno, J.

Postdoctoral Bridge Scholarship

Biomedical Neuroscience Institute (BNI), University of Chile

Santiago, Chile

Sep. 2018

Scholarship for Internship Abroad

MECESUP Program Uch1304, University of Chile

Santiago, Chile

Jul. 2015

CONICYT National PhD Scholarship for Foreigners

Ministry of Education, Government of Chile

Santiago, Chile

Mar. 2013

Master’s approval with maximum distinction

Postgraduate School, University of Chile

Santiago, Chile

Jun. 2013

Ten best results at national level according to academic program: ECAES test

Ministry of Education, Republic of Colombia

Medellín, Colombia

2008